Find research datasets worth reusing
Search datasets from major research repositories and use ShareScore to quickly assess how well each record supports discovery, access, and reuse.
28
datasets available to search
ShareScore release 0.9.0
Dataset results
28 results for “diatom assemblages”
Seismic profiles, diatom and microfossil assemblages, and radiocarbon ages for constructing a post-glacial sea level curve from Fiordland, New Zealand
Two research cruises (12PL027 and 13PL018) were conducted aboard the University of Otago RV Polaris II in 2012 and 2013 to collect marine sediment cores and 2d seismic data as part of a collaborative research effort to study late-Pleistocene and Holocene environmental change in New Zealand. Data includes 4 Boomer seismic profiles, 4 CHIRP seismic profiles, seismic line GPS tracks, diatom assemblages (raw counts and relative abundances) and microfossil assemblages (raw counts and relative abundances), and radiocarbon ages from 4 marine sediment cores. The data used to construct a post-glacial sea level curve for Fiordland, New Zealand are also included, as well as data from published literature plotted for global comparisons. These data accompany the publication: Dlabola. E.K., Wilson, G.S., Gorman, A.R., Riesselman, C.R., and Moy, C.M. 2015. A post-glacial sea-level curve from Fiordland, New Zealand. Global and Planetary Change, 131, 101-114. https://doi.org/10.1016/j.gloplacha.2015.05.010
Metacommunity simulations for diatom assemblages residing in benthic cyanobacterial mats in Fryxell Basin in Taylor Valley in the McMurdo Dry Valleys, Antarctica
Here, we use MCSim, a spatially explicit metacommunity simulation package for R, to test alternative hypotheses about the roles of dispersal and species sorting in maintaining the biodiversity of diatom assemblages residing in black and orange mats in Fryxell Basin in Taylor Valley in the McMurdo Dry Valleys of Antarctica. The spatial distribution and patchiness of cyanobacterial mat habitats was characterized by remote imagery of the Lake Fryxell sub-catchment in Taylor Valley collected in January 2015. The available species pool for diatom metacommunity simulation scenarios was informed by the Antarctic Freshwater Diatoms Database, maintained by the McMurdo Dry Valleys Long Term Ecological Research program, representing samples collected between January 1994 and January 2013. We used simulation outcomes to test the plausibility of alternative community assembly hypotheses to explain empirically observed patterns of freshwater diatom biodiversity in the long-term record. The most plausible simulation scenarios suggest species sorting by environmental filters, alone, was not sufficient to maintain biodiversity in the Fryxell Basin diatom metacommunity. The most plausible scenarios included either (1) neutral models with different immigration rates for diatoms in orange and black mats or (2) species sorting by a relatively weak environmental filter, such that dispersal dynamics also influenced diatom community assembly, but there was not such a strong disparity in immigration rates between mat types. The results point to the importance of dispersal for understanding current and future biodiversity patterns for diatoms in this ecosystem, and more generally, provide further evidence that metacommunity theory is a useful framework for testing hypotheses about microbial community assembly. This dataset supports the paper: Sokol, E. Et al, 2020. Evaluating Alternative Metacommunity Hypotheses for Diatoms in the McMurdo Dry Valleys Using Simulations and Remote Sensing Data
Hyporheic diatom community assemblages from Von Guerard Stream, Taylor Valley, McMurdo Dry Valleys, Antarctica in January 2019
In this data package, we present diatom community assemblages from hyporheic sediments collected in January 2019 from six transects across Von Guerard Stream, Taylor Valley, Antarctica. These samples were collected to address questions about the retention and processing of particulate organic matter in the hyporheic zone of McMurdo Dry Valley streams. The six transects were located at pools, riffles, and meanders (three of each geomorphology type) along Von Guerard Stream and extended across the stream channel to the edges of the wetted zone, ranging from 6.6 to 13.6 m in length. At each sampling location, we collected subsurface sediment sample that was preserved in formalin directly after sample collection. We characterized diatom assemblages by counting a total of 300 diatom valves from each preserved diatom sample. This data package is associated with a complementary data package that contains hyporheic sediment chemistry for the same samples.
The Meltwater Pulse1A Triggered an Extreme Cooling Event: Evidence From Southern China. Meltwater Pulse Cooling Event (MCE). Winter temperature data during the last deglacial of Huguangyan Maar lake, Surface water temperature and seasonal diatom assemblage data of Huguangyan and Yunlong Lake.
<p>Here we present results of The lake averaged monthly mean surface water temperature over the period from September 2013 to August 2015 from Yunlong Tianchi Lake(YL)(25°52.2′N, 99°16.8′E, altitude: 2551 m a.s.l), southwestern China. The dataset include sediment trap main diatom percentages over the period from September 2013 to August 2015 from YL. Lake water temperature profiles at different depths (1, 3, 6, 9, 11, 13, 16 m) from November 2008 to May 2009 in Huguang Maar Lake (HML)(21°9′N, 110°17′E), Southern China. AMS radiocarbon dates of plant remains and bulk sediment samples for Huguangyan Maar Lake over the last ~17 cal ka BP. The main diatom assemblage percentages (%) from 17 to 10 cal ka BP at Huguangyan Maar Lake. Diatom-based reconstruction of winter temperature (WT) from 17 to 10 cal ka BP at Huguangyan Maar Lake.</p>
Data from: Molecular profiling of diatom assemblages in tropical lake sediments using taxon-specific PCR and Denaturing High-Performance Liquid Chromatography (PCR-DHPLC)
Here we present a protocol to genetically detect diatoms in sediments of the Kenyan tropical Lake Naivasha, based on taxon-specific PCR amplification of short fragments (approx. 100 bp) of the small subunit ribosomal (SSU) gene and subsequent separation of species-specific PCR products by PCR-based DHPLC. An evaluation of amplicons differing in primer specificity to diatoms and length of the fragments amplified demonstrated that the number of different diatom sequence types detected after cloning of the PCR products critically depended on the specificity of the primers to diatoms and the length of the amplified fragments whereby shorter fragments yielded more species of diatoms. The DHPLC was able to discriminate between very short amplicons based on the sequence difference, even if the fragments were of identical length. and if the amplicons differed only in a small number of nucleotides. Generally the method identified the dominant sequence types from mixed amplifications. A comparison with microscopic analysis of the sediment samples revealed that the sequence types identified in the molecular assessment corresponded well with the most dominant species. In summary, the PCR-based DHPLC protocol offers a fast, reliable, and cost-efficient possibility to study DNA from sediments and other environmental samples with unknown organismic content, even for very short DNA fragments.
FIGURE 10 in New and interesting aerial diatom assemblages from southwestern Iceland
FIGURE 10. Light (B–z) and SEM (A) microscopy images of aerial diatom assemblages from southwestern Iceland, mostly in valve view. A–E. Diatomella balfouriana: A, D–E. girdle views, B. valve view with striae in focus, C. septa with openings in focus; F. Encyonema langebertalotii; G. Gomphonema sp. 1; H. Gomphonema bipunctatum; I. Cymbopleura cf. subaequalis, J. Naviculoid sp. 1; K. Amphora ovalis; L. Tryblionella debilis; M–O, a. Platessa rupestris var. interrupta; P–Q. Platessa rupestris; R. Adlafia bryophila; S–U. Microcostatus krasskei; V. Neidium bisulcatum; W. Hantzschia amphioxys; X. Navicula cf. radiosa; Y–Z, a. Psammothidium marginulatum; b. Navicula seminulum var. radiosa; c. Sellaphora seminulum; d–e. Fallacia insociabilis; f. Brachysira brebissonii; g. Naviculoid sp. 2; h–i. Adlafia suchlandtii j= Luticola c.f. nivaloides, k. Luticola sp. 1; l. Luticola cf. mutica; m. Sellaphora rectangularis; n. Cavinula variostriata; o Nitzschia sinuata; p–q, s–v. Nitzschia perminuta; r. Nitzschia soratensis, w. Diploneis ovalis; x–y. Rhoicosphenia cf. californica; z. Rhoicosphenia abbreviata. Scale bar =10 μm unless stated otherwise shown, '=' represents focus on each valve of the same frustule.
FIGURE 7 in New and interesting aerial diatom assemblages from southwestern Iceland
FIGURE 7. Light (C–I) and SEM (A–B, J–L) microscopy images of aerial diatom assemblages from southwestern Iceland. A–E. Humidophila biceps: A–B external, valve view showing external expression of areolae, distal raphe endings, and proximal raphe endings with adjacent depressions (arrow). C–E. valve view; F–L. Humidophila perpusilla: F–I. size series in valve view, and J–L. external view of valve and tilted frustule showing valve and girdle views. Note depressions flanking proximal raphe ends (arrow). M–P. Humidophila parallela: valve view. P. external view showing hints of T-shaped proximal and distal raphe endings. LM scale bar = 10 μm, SEM scale bars as shown.
FIGURE 5 in New and interesting aerial diatom assemblages from southwestern Iceland
FIGURE 5. Light (A–F, K–L) and SEM (G–I) microscopy images of aerial diatom assemblages from southwestern Iceland, Eunotia species. A–F, H–I. Eunotia bigibba: A. two live frustules in girdle view, C–F, I. valve view, B–F. size diminution series, and B. girdle view showing raphe position, H. arrangement of the cingulum and areolae on the mantle, and I. valve view showing arrangement of punctate striae and raphe ends on the valve face. Note the appearance of the hyaline area on the ventral edge of the valve where the striae stop short (i); G, K–L. Eunotia bidens: all valve views, note the swellings along the ventral margin where the proximal raphe ends. Frustule K slightly tilted. LM scale bar = 10 μm, SEM scale bars as shown.
FIGURE 8 in New and interesting aerial diatom assemblages from southwestern Iceland
FIGURE 8. Light (E–L, N–O) and SEM (A–D, M, P–S) microscopy images of aerial diatom assemblages from southwestern Iceland. A–H. Humidophila eldfjallii Furey, Manoylov et Lowe sp. nov.: A. external and B. internal valve views, C. close up valve apex showing distal raphe ends. D. close up of central area showing proximal raphe ends. E–H. valve view, F. holotype; I–M, R–S. Humidophila paracontenta: I–L valve view, M. internal valve view, R. external valve, and S. both valve and girdle views. Note depressions flanking distal and proximal raphe ends (arrows); N–Q. H. sp. 1, N–O. valve view, N. representative specimen circled on slide GCAC4212, P–Q. external valve view. Note depressions flanking proximal raphe ends (arrow). LM scale bar = 10 μm, SEM scale bars as shown.
FIGURE 9 in New and interesting aerial diatom assemblages from southwestern Iceland
FIGURE 9. Light (E–J) and SEM (A–D) microscopy images of aerial diatom populations of Humidophila gallica from southwestern Iceland. A–B. external view showing spine location and external expression of areolae, C–D. girdle view of two linked frustules showing side view of spines and presence of areolae on valve mantle and cingulum, E–F. valve view of longer form, G. tilted girdle view of a single frustule with visible spines, H. girdle view of a chain of cells. I–J. valve view of shorter form. LM scale bar = 10 μm, SEM scale bars as shown.
FIGURE 4 in New and interesting aerial diatom assemblages from southwestern Iceland
FIGURE 4. Light (A–I, N–c) and SEM (J–M) images of aerial diatom assemblages from southwestern Iceland, Eunotia species. A–F, J–L. Eunotia palatina: A–F. size diminution series, the striae end short on the valve face to create the appearance of a hyaline strip (i), J. internal views of a valve apex showing the location of the helictoglossa, a hyaline area (i) and swelling where the proximal raphe ends (ii), K. a whole valve, internal view (scale bar as in L), and L. a frustule with both valve and girdle views visible; G–I, M. Eunotia arctica: G–I. valve views, M. external view shows striae and hyaline band along the ventral edge; N. Eunotia cf. valida: valve view; O–P. Eunotia cf. fallax: valve view; Q–W. Eunotia neofallax: valve view, V. half valve / half girdle view, and W. girdle view; X–c. Eunotia nymanniana: valve view. LM scale bar = 10 μm, SEM scale bars as shown.
FIGURE 3 in New and interesting aerial diatom assemblages from southwestern Iceland
FIGURE 3. SEM microscopy images of aerial diatom assemblages from southwestern Iceland. A–D. Orthoseira roeseana: A–B. external valve view with 3 and 4 carinoportulae in the center with a rim, and uniseriate striae, C. internal valve view shows the simple opening of the carinoportulae, D. external view of valve mantle and part of the girdle show the spatulate spines and irregular girdle bands. Scale bars as shown.
FIGURE 2 in New and interesting aerial diatom assemblages from southwestern Iceland
FIGURE 2. Light (B–T) and SEM (A, U–V) microscopy images of diatom assemblages from aerial sites in southwestern Iceland. A–G. Staurosirella neopinnata: A. external, girdle view of two linked frustules, left frustule shows the completed synthesis of new valves within the frustule, B–D. size series in valve and E–G. girdle view, F and G. two linked frustules; H. Fragilaria nitzschioides: valve view; I–J. Meridion circulare var. constrictum: I. 2 frustules in girdle view, J. valve view; K. Fragilaria perminuta: valve view; L–M. Aulacoseira alpigena: L. girdle view and M. valve view; N, S–T. Orthoseira roeseana: N. girdle view with irregular linking spines and longitudinal areolae on the valve mantle, S–T. Valve view with 3 to 4 carinoportulae; O–P. Stauroforma atomus: valve views; Q, R, U–V. Hygropetra balfouriana: Q–R. valve view, U. SEM of a tilted frustule with both valve and girdle views visible, U. shows the nature of the striae, and raphe, V. internal view. LM scale bar = 10 μm, SEM scale bars as shown.
FIGURE 12. Light F–H and A–E in New and interesting aerial diatom assemblages from southwestern Iceland
FIGURE 12. Light F–H and A–E SEM microscopy images of aerial diatom assemblages from southwestern Iceland. A, F. Cosmioneis pusilla; B. Platessa rupestris var. interrupta; C. Psammothidium sp. 1; D. Pinnularia borealis; E. Planothidium lanceolatum; G. Stauroneis subgracilis; H. Rhopalodia rupestris. LM scale bar = 10 μm, SEM scale bars as shown.
FIGURE 1 in New and interesting aerial diatom assemblages from southwestern Iceland
FIGURE 1. Example of wetwall (WW) habitats sampled (arrows; spoon for scale, details in Table 1). Images A–D, G–H. show euaerial sites and E–F. a pseudoaerial site. From the Hengill watershed: A–B. WW 1; C. WW 3; G. WW 52 (black arrow); G–H. WW 53 (white arrow). From along Landmannaleið road: D. near Hekla road turn off (WW 50). From the Þingvellir rift valley: E–F. a pseudoaerial site (WW 42).
FIGURE 11 in New and interesting aerial diatom assemblages from southwestern Iceland
FIGURE 11. Light microscopy images of aerial diatom assemblages from southwestern Iceland. A. Pinnularia cf. subcommutata; B. Pinnularia stomatophora; C. Pinnularia sp. 2; D. Pinnularia sp. 1; E. Pinnularia borealis; F. Pinnularia borealis f. subcapitata; G. Pinnularia borealis var. islandica girdle view; H. Pinnularia borealis var. lanceolata; I–J. Pinnularia intermedia; K–M. Pinnularia parva; N–O. Pinnularia minoricapitata; P. Muellaria gibulla; Q. Achnanthes coarctata; R. Caloneis schumanniana; S–T. Caloneis silicula; U–W. Caloneis tenuis; X–a. Stauroneis cf. borrichii. LM scale bar = 10 μm.
FIGURE 6 in New and interesting aerial diatom assemblages from southwestern Iceland
FIGURE 6. Light (A–E) and SEM (F–J) microscopy images of aerial, diatom population of Eunotia curtagrunowii from southwestern Iceland. A–C. valve view size diminution series and D–E. girdle view with different focuses, F. internal view showing helictoglossa and internal opening of areolae with a close up of the apex of the same valve in I. to show the internal expression of the rimoportula (arrow), G. close up of valve apex with external opening to the rimoportula (arrow), H. external view, showing arrangement of striae and raphe ends on the valve face, note the markings along the ventral edge of the valve face, J. tilted girdle view showing cingulum. LM scale bar = 10 μm, SEM scale bars as shown.
FIGURE 7 in Water Quality and Wet Season Diatom Assemblage Characteristics from the Tamiami Trail Pilot Swales Sites (Everglades National Park, Florida, USA)
FIGURE 7: Non-metric Multidimensional Scaling ordination plot for diatom assemblage similarity among transect sites. Bray-Curtis similarity is the distance metric. Two dimensional stress = 0.15.
FIGURE 2 in Water Quality and Wet Season Diatom Assemblage Characteristics from the Tamiami Trail Pilot Swales Sites (Everglades National Park, Florida, USA)
FIGURE 2: Stylized layout of a typical culvert site showing Tamiami Trail, the culvert and associated scourpool, the vegetation halo, transitional area, and locations of transect sampling sites and ISCO autosampler.
FIGURE 4 in Water Quality and Wet Season Diatom Assemblage Characteristics from the Tamiami Trail Pilot Swales Sites (Everglades National Park, Florida, USA)
FIGURE 4: Example of water column nutrient concentration from transect station water grab samples at culvert C47. 4a: Total nitrogen concentrations. 4b: Total phosphorus concentrations. Site names are represented by transect and location initials. For example NC is North transect, Central location.
ScienceDex guides
Understand access before you commit
These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.